cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i HCC1395_BL.bam -r Homo_sapiens_assembly38.fasta --algo LocusCollector --fun score_info HCC1395_BL.md.score
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:163000001, elapsed 0.1s, est remaining 1.3s, peak mem 81MB, user 0.2s, sys 1.4s, output queue size 18
progress 10% @chr2:75000001, elapsed 0.1s, est remaining 1.2s, peak mem 81MB, user 0.4s, sys 3.1s, output queue size 12
progress 15% @chr2:239000001, elapsed 0.2s, est remaining 1.1s, peak mem 81MB, user 0.6s, sys 4.8s, output queue size 27
progress 20% @chr3:155000001, elapsed 0.3s, est remaining 1.0s, peak mem 81MB, user 0.8s, sys 6.4s, output queue size 5
progress 25% @chr4:93000001, elapsed 0.3s, est remaining 0.9s, peak mem 81MB, user 0.9s, sys 8.2s, output queue size 22
progress 30% @chr5:85000001, elapsed 0.4s, est remaining 0.9s, peak mem 81MB, user 1.1s, sys 9.8s, output queue size 1
progress 35% @chr6:67000001, elapsed 0.4s, est remaining 0.8s, peak mem 81MB, user 1.3s, sys 11.5s, output queue size 18
progress 40% @chr7:55000001, elapsed 0.5s, est remaining 0.7s, peak mem 81MB, user 1.4s, sys 13.1s, output queue size 22
progress 45% @chr8:57000001, elapsed 0.5s, est remaining 0.7s, peak mem 81MB, user 1.5s, sys 14.9s, output queue size 15
progress 50% @chr9:73000001, elapsed 0.6s, est remaining 0.6s, peak mem 81MB, user 1.6s, sys 16.6s, output queue size 20
progress 55% @chr10:97000001, elapsed 0.7s, est remaining 0.5s, peak mem 81MB, user 1.8s, sys 18.3s, output queue size 8
progress 60% @chr11:123000001, elapsed 0.7s, est remaining 0.5s, peak mem 81MB, user 1.9s, sys 19.9s, output queue size 13
progress 65% @chr13:16000001, elapsed 0.8s, est remaining 0.4s, peak mem 81MB, user 2.1s, sys 21.6s, output queue size 4
progress 70% @chr14:63000001, elapsed 0.8s, est remaining 0.4s, peak mem 81MB, user 2.2s, sys 23.3s, output queue size 21
progress 75% @chr16:16000001, elapsed 0.9s, est remaining 0.3s, peak mem 81MB, user 2.4s, sys 25.0s, output queue size 21
progress 80% @chr18:1, elapsed 1.0s, est remaining 0.2s, peak mem 81MB, user 2.5s, sys 26.7s, output queue size 22
progress 85% @chr20:22000001, elapsed 1.0s, est remaining 0.2s, peak mem 81MB, user 2.6s, sys 28.5s, output queue size 15
progress 90% @chrX:29000001, elapsed 1.1s, est remaining 0.1s, peak mem 124MB, user 3.2s, sys 30.0s, output queue size 114
progress 95% @chrY:31000001, elapsed 1.2s, est remaining 0.1s, peak mem 156MB, user 3.4s, sys 32.4s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.5s, est remaining 0.0s, peak mem 190MB, user 4.2s, sys 35.4s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000a06d1
  features: 1f8bfbff fffab20b
  extended: f1bf27eb 1b407f7e
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) 6975P-C
threads: 31 max 192
algo: LocusCollector
license: sentieon:Dedup=31
input file size: 50411654
reads: 1001089
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.015 user 0.025 sys 0.050 real
VcfLineRecordHelper::sort: 30 calls 0.001 user 0.000 sys 0.000 real
advance: 3219322 calls 1.357 user 7.082 sys 8.723 real
calc: 3219322 calls 0.371 user 5.470 sys 6.281 real
done: 1 calls 0.015 user 0.025 sys 0.050 real
execute: 1 calls 0.004 user 0.003 sys 1.458 real
fetch: 3219322 calls 0.292 user 5.579 sys 6.237 real
idle: 72 calls 0.006 user 0.019 sys 35.642 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 248471552 mem 4.340 user 35.896 sys 2.516 real
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i HCC1395_BL.bam -r Homo_sapiens_assembly38.fasta --algo Dedup --score_info HCC1395_BL.md.score --metrics HCC1395_BL.md.metrics HCC1395_BL.md.bam
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:160000001, elapsed 0.1s, est remaining 2.0s, peak mem 193MB, user 0.4s, sys 2.4s, output queue size 1
progress 10% @chr2:74000001, elapsed 0.2s, est remaining 1.7s, peak mem 220MB, user 0.7s, sys 4.6s, output queue size 1
progress 15% @chr2:234000001, elapsed 0.3s, est remaining 1.6s, peak mem 244MB, user 1.1s, sys 6.6s, output queue size 7
progress 20% @chr3:152000001, elapsed 0.4s, est remaining 1.4s, peak mem 258MB, user 1.3s, sys 9.0s, output queue size 1
progress 25% @chr4:114000001, elapsed 0.4s, est remaining 1.3s, peak mem 270MB, user 1.6s, sys 11.2s, output queue size 1
progress 30% @chr5:86000001, elapsed 0.5s, est remaining 1.2s, peak mem 271MB, user 1.8s, sys 13.4s, output queue size 7
progress 35% @chr6:65000001, elapsed 0.6s, est remaining 1.1s, peak mem 280MB, user 2.0s, sys 15.7s, output queue size 14
progress 40% @chr7:57000001, elapsed 0.7s, est remaining 1.0s, peak mem 283MB, user 2.3s, sys 18.0s, output queue size 18
progress 45% @chr8:51000001, elapsed 0.8s, est remaining 0.9s, peak mem 288MB, user 2.5s, sys 20.4s, output queue size 18
progress 50% @chr9:73000001, elapsed 0.8s, est remaining 0.8s, peak mem 297MB, user 2.7s, sys 22.7s, output queue size 1
progress 55% @chr10:95000001, elapsed 0.9s, est remaining 0.8s, peak mem 297MB, user 3.0s, sys 24.9s, output queue size 1
progress 60% @chr11:121000001, elapsed 1.0s, est remaining 0.7s, peak mem 300MB, user 3.2s, sys 27.2s, output queue size 2
progress 65% @chr13:16000001, elapsed 1.1s, est remaining 0.6s, peak mem 300MB, user 3.5s, sys 29.5s, output queue size 6
progress 70% @chr14:63000001, elapsed 1.2s, est remaining 0.5s, peak mem 304MB, user 3.7s, sys 31.9s, output queue size 16
progress 75% @chr16:14000001, elapsed 1.3s, est remaining 0.4s, peak mem 306MB, user 4.0s, sys 34.2s, output queue size 8
progress 80% @chr18:1, elapsed 1.3s, est remaining 0.3s, peak mem 307MB, user 4.2s, sys 36.6s, output queue size 12
progress 85% @chr20:22000001, elapsed 1.4s, est remaining 0.3s, peak mem 307MB, user 4.5s, sys 38.9s, output queue size 19
progress 90% @chrX:40000001, elapsed 1.6s, est remaining 0.2s, peak mem 537MB, user 6.3s, sys 40.4s, output queue size 114
progress 95% @chrY:37000001, elapsed 1.7s, est remaining 0.1s, peak mem 547MB, user 7.8s, sys 41.3s, output queue size 276
progress 100% @chr21:41000001, elapsed 2.8s, est remaining 0.0s, peak mem 576MB, user 13.2s, sys 42.9s, output queue size 3664
library HCC1395_BL:
chimeric_paired 873
duped 146553
duped_chimeric_paired 2
duped_paired 146548
duped_unpaired 5
optical_dup 4835
paired 999974
reads 1001089
secondary_supplementary 1097
unmapped 9
unpaired 9
optical dup clusters 4702, maxdup 7, total optical dup pairs 4835
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000a06d1
  features: 1f8bfbff fffab20b
  extended: f1bf27eb 1b407f7e
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) 6975P-C
threads: 31 max 192
algo: Dedup
license: sentieon:Dedup=31
input file size: 50411654
reads: 1001089
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 25531 calls 0.000 user 0.000 sys 0.021 real
MateInfoByVcf::load: 25531 calls 4.081 user 0.765 sys 3.819 real
MateInfoByVcf::parse_events: 25531 calls 4.058 user 0.711 sys 3.717 real
advance: 3219322 calls 0.990 user 5.146 sys 6.823 real
calc: 3219322 calls 4.419 user 15.369 sys 20.368 real
done: 1 calls 0.000 user 0.000 sys 0.003 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.003 user 0.001 sys 2.867 real
fetch: 3219322 calls 0.411 user 5.436 sys 5.686 real
find_pairEnds: 25531 calls 0.199 user 0.005 sys 0.326 real
idle: 1940 calls 0.180 user 0.101 sys 60.470 real
init: 1 calls 0.010 user 0.000 sys 0.006 real
markDup: 25531 calls 0.833 user 0.072 sys 1.263 real
vcfadvance: 25531 calls 0.007 user 0.072 sys 0.026 real
write: 3219322 calls 2.368 user 5.577 sys 7.455 real
overall: 604270592 mem 14.044 user 44.007 sys 3.892 real